Locus 1571

Sequence ID 2L_DroMel_CAF1
Location 4,236,408 – 4,236,508
Length 100
Max. P 0.818413
window2528 window2529

overview

Window 8

Location 4,236,408 – 4,236,508
Length 100
Sequences 4
Columns 100
Reading direction forward
Mean pairwise identity 94.33
Mean single sequence MFE -34.17
Consensus MFE -30.59
Energy contribution -30.02
Covariance contribution -0.56
Combinations/Pair 1.14
Mean z-score -1.77
Structure conservation index 0.90
SVM decision value 0.67
SVM RNA-class probability 0.818413
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 4236408 100 + 22407834
UAGUUUGUGGCAGGCAACAGAGGCGAGUUGGCCGCAAGGAAACAGGAUGGCAGCGGCCAGGAUUUGUCUACCUCUGAGGCAGCCAAGUUGAAAGGGCAAA
..((((.((((..((..((((((((((((((((((..(....).(.....).)))))))..)))))....))))))..)).))))........))))... ( -35.30)
>DroSec_CAF1 11542 100 + 1
UAGUUUGUGGCAGGCAACAGGGGCGAGUUGGCCGCAAGGAAACAGGAUGGCAGCGGCCAGGAUUUGUCUACCUCUGGAGCAGCCAUGUUGAAAGGGCAAA
......(((((..((..((((((((((((((((((..(....).(.....).)))))))..)))))....))))))..)).))))).............. ( -35.70)
>DroEre_CAF1 11917 100 + 1
UAGUUUGUGGCAGGCAACAGGGGCAAGUUGGCCGCAAGGAAACAGGAUGGCAGCGGCCAGGAUUUGUCUACCUCUGAAUCAGCCAACUUGAAAGGGCCAA
.......((((.(((..((((((((((((((((((..(....).(.....).)))))))..)))))....)))))).....)))..((.....)))))). ( -33.50)
>DroYak_CAF1 19908 100 + 1
UAGUUUGUGGCAGGCAACAGGGGCGAAUUGGCCGCAAGGAAACAGGAUGGCAGCGGCCAGGAUUUGUCUACCUCCGAAUCAGCCAAGUUGAAGGGGCAAA
.......((.(...((((...(((...((((((((..(....).(.....).))))))))((((((........)))))).)))..))))....).)).. ( -32.20)
>consensus
UAGUUUGUGGCAGGCAACAGGGGCGAGUUGGCCGCAAGGAAACAGGAUGGCAGCGGCCAGGAUUUGUCUACCUCUGAAGCAGCCAAGUUGAAAGGGCAAA
.......((((.(....)..(((((((((((((((..(....).(.....).)))))))..))))))))............))))............... (-30.59 = -30.02 +  -0.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 9

Location 4,236,408 – 4,236,508
Length 100
Sequences 4
Columns 100
Reading direction reverse
Mean pairwise identity 94.33
Mean single sequence MFE -29.08
Consensus MFE -23.84
Energy contribution -24.16
Covariance contribution 0.31
Combinations/Pair 1.05
Mean z-score -2.10
Structure conservation index 0.82
SVM decision value 0.55
SVM RNA-class probability 0.778245
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 4236408 100 - 22407834
UUUGCCCUUUCAACUUGGCUGCCUCAGAGGUAGACAAAUCCUGGCCGCUGCCAUCCUGUUUCCUUGCGGCCAACUCGCCUCUGUUGCCUGCCACAAACUA
...............((((.((..(((((((.((....)).(((((((.................)))))))....)))))))..))..))))....... ( -32.43)
>DroSec_CAF1 11542 100 - 1
UUUGCCCUUUCAACAUGGCUGCUCCAGAGGUAGACAAAUCCUGGCCGCUGCCAUCCUGUUUCCUUGCGGCCAACUCGCCCCUGUUGCCUGCCACAAACUA
...............((((.((..(((.(((.((....)).(((((((.................)))))))....))).)))..))..))))....... ( -27.83)
>DroEre_CAF1 11917 100 - 1
UUGGCCCUUUCAAGUUGGCUGAUUCAGAGGUAGACAAAUCCUGGCCGCUGCCAUCCUGUUUCCUUGCGGCCAACUUGCCCCUGUUGCCUGCCACAAACUA
..(((.....(((((((((((.....((((.(((((.....((((....))))...))))))))).)))))))))))........)))............ ( -32.42)
>DroYak_CAF1 19908 100 - 1
UUUGCCCCUUCAACUUGGCUGAUUCGGAGGUAGACAAAUCCUGGCCGCUGCCAUCCUGUUUCCUUGCGGCCAAUUCGCCCCUGUUGCCUGCCACAAACUA
...((.....((((..(((......(((.(....)...)))(((((((.................)))))))....)))...))))...))......... ( -23.63)
>consensus
UUUGCCCUUUCAACUUGGCUGAUUCAGAGGUAGACAAAUCCUGGCCGCUGCCAUCCUGUUUCCUUGCGGCCAACUCGCCCCUGUUGCCUGCCACAAACUA
...............((((.((..(((.(((.((....)).(((((((.................)))))))....))).)))..))..))))....... (-23.84 = -24.16 +   0.31)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:05:42 2006